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A Comparison Of Particulate Matter Deposition Onto Green Roof Species And White Roof In Portland, Oregon, Amelia Drake

University Honors Theses

This study explores the following question: how do different green roof vegetation species contribute to particulate matter deposition relative to a white roof in Portland, Oregon? To answer this question, rinse water from two species of vegetation and rinse water from a white roof were filtered to measure the mass of particles found on these leaves. Leaf area was then determined in order to calculate the density of particles found on each surface. The resulting conclusions from this process clearly indicate that a larger density of particles collected on vegetative surfaces as opposed to the surface of the white roof. …

Marine Robot Deployment And Control System, Nicky Castillo, Nick Ellis, Trent Kelsall, Matt Kiyama

Interdisciplinary Design Senior Theses

A full operations package for underwater research, including the mid-sized ROV Nautilus with a distributed control system, a topside graphical user interface (GUI), and a dedicated launch and recovery system (LARS), was developed to increase the operational efficiency of scientific exploration and experimentation missions through Santa Clara University’s (SCU’s) Robotics Systems Laboratory (RSL). Design of the mechanical subsystems on Nautilus added flexibility of usage and protection of components. The new GUI improved pilot control of Nautilus with an added heads-up display and easy access to sensor readouts. The simulated Nautilus altitude control system has an error of ±1% and a …

The Modular Oceanic Autonomous Underwater Vehicle For Novel Actuation, Bryan Gilbertson, John Elstad, Matthew Holmes, Sean Even, Robert Percell, Andrew Kambe, Gregor Limstrom

Interdisciplinary Design Senior Theses

A low-drag, high endurance, and high efficiency Long Range Autonomous Underwater Vehicle is a desired asset to Santa Clara University to aid future underwater vehicle development efforts. Such an vehicle will demonstrate novel actuation methods and provide the on-campus Robotics Systems Laboratory with a modular prototype to aid research and academic efforts. In this paper, we document the construction of a low cost, modular, demonstration vehicle that satisfies the requirements for high-efficiency operation and modular interfaces. The completed vehicle features standard actuation abilities utilizing low-drag methods that qualify it for shallow water operation. Furthermore, the vehicle demonstrates the feasibility of …

Emerging Investigator Series: Interacting Effects Of Environmental Factors On: Daphnia Magna Removal Of Escherichia Coli From Wastewater, Seyyed M.H. Abtahi, Ojaswi Aryal, Niveen S. Ismail

Engineering: Faculty Publications

Treatment wetlands can remove a wide range of pollutants from wastewater and stormwater runoff, including microbial pollutants such as Escherichia coli. Filter feeding zooplankton play an important role in improving water quality in treatment wetlands through grazing and subsequent inactivation of E. coli. Understanding how climate change will impact the various processes governing microbial inactivation in treatment wetlands is essential to ensure adequately treated water. We investigated the impact of interacting environmental factors on the E. coli clearance rate of a keystone zooplankton species, Daphnia magna. We utilized a full factorial experimental design to test the impacts of food abundance, …

Mems 411: Portable Ground Work Station - Group C, Samantha Hudson, Valeria Pinedo Chipana, Valentina Harding, Luis Acosta

Mechanical Engineering Design Project Class

Build a ergonomic, portable, and weather resistant ground work station for members of the department of Biology to use during field research.

Gagrank: Software For Glycosaminoglycan Sequence Ranking Using A Bipartite Graph Model, John D. Hogan, Jiandong Wu, Joshua A. Klein, Cheng Lin, Luis Carvalho, Joseph Zaia

Chemical and Biochemical Engineering Faculty Research & Creative Works

The Sulfated Glycosaminoglycans (GAGs) Are Long, Linear Polysaccharide Chains that Are Typically Found as the Glycan Portion of Proteoglycans. These GAGs Are Characterized by Repeating Disaccharide Units with Variable Sulfation and Acetylation Patterns Along the Chain. GAG Length and Modification Patterns Have Profound Impacts on Growth Factor Signaling Mechanisms Central to Numerous Physiological Processes. Electron Activated Dissociation Tandem Mass Spectrometry is a Very Effective Technique for Assigning the Structures of GAG Saccharides; However, Manual Interpretation of the Resulting Complex Tandem Mass Spectra is a Difficult and Time-Consuming Process that Drives the Development of Computational Methods for Accurate and Efficient Sequencing. …

Polymer Microparticles For Encapsulation And Presentation Of Anti-Inflammatory Agents For Inflammatory Diseases, Christopher Isely

Theses and Dissertations

Inflammatory diseases have a huge economic impact on the healthcare system. Incidence of obesity and muscle atrophy, two high profile inflammatory diseases, continues to increase. Anti-inflammatory agents are potential therapeutics for these diseases. Resveratrol is a polyphenol that has anti-inflammatory effects; however, resveratrol suffers from low bioavailability and hasn’t had impressive clinical results when delivered orally. Mannose is a monosaccharide that also has anti-inflammatory effects, however, effects are highest when mannose is presented on the surface of a support the size of a bacteria. Incorporation of resveratrol and mannose into biodegradable polymer microparticles could be a feasible approach to overcome …

Anisotropic Wave Behavior In Isotropic Material With Orthogonal Surface Perturbation, Khaleda Akter

Theses and Dissertations

Elastic wave propagation in anisotropic media is of great interest in various branches of engineering and applied sciences. In this study, an anisotropic wave propagation behavior in isotropic material with orthogonal surface perturbation is presented. The conventional method of estimating dispersion equations for isotropic material is to apply Helmholtz decomposition on the potential functions for Rayleigh-Lamb wave and Shear Horizontal (SH) waves. However, the presence of isotropic material with orthogonal surface perturbations in two coordinate directions significantly affect the wave propagation behavior due to its direction dependency, and hence, the Helmholtz decomposition of the potential functions cannot be applied to …

Age And Sex Dependency Of Thoracic Aortic Aneurysm Progression In A Mouse Model Of Marfan Syndrome, Nazli Gharraee

Theses and Dissertations

Aneurysm of the ascending aorta is the most common type of thoracic aortic aneurysm, and it is a life-threatening manifestation of Marfan syndrome (MFS), a connective tissue disorder caused by mutation of the FBN1 gene. Incidence of Marfan syndrome is similar for men and women; however, men suffer from more severe aortic events compared to women.

This study aims to provide a better understanding of age and sex dependency of cell and extracellular matrix alterations of the aortic wall during the progression of the aneurysm caused by Marfan syndrome. To achieve this goal, the C1041G/+ mouse model of Marfan syndrome …

Fate Of Nitrogen And Effectiveness Of Evaporation On Managing Leachate In Collection And Storage Ponds: A Case Study At The Three Rivers Solid Waste Authority Regional Landfill, Kaitlen Rose Drafts

Theses and Dissertations

Treatment of leachate from municipal solid waste (MSW) landfills can be complex and difficult, due to the variety of contaminants present. The purpose of this work was to evaluate the fate of nitrogen and effectiveness of leachate evaporation in a leachate storage and collection pond at the Three Rivers Solid Waste Authority (TRSWA) MSW landfill in Jackson, South Carolina. This was accomplished by determining the fate of nitrogen species in the pond, exploring effect of the site’s Lilypad droplet sprayer system on ammonia-nitrogen, and exploring potential to reduce overall quantity of leachate to be treated through evaporation from the pond. …

Role Of Ahr Ligands In Immune Modulation To Suppress Inflammation Through The Regulation Of Microrna And Gut Microbiome, Osama Azeldeen Abdulla

Theses and Dissertations

The aryl hydrocarbon receptor (AhR) is a ligand-activated transcription factor and an environmental sensor that is highly conserved evolutionarily. It was first discovered in the early 1970s for its ability to bind with high affinity to 2,3,7,8-Tetrachlorodibenzo-p-dioxin (TCDD), an environmental pollutant and induce a xenobiotic-metabolizing enzyme known as aryl hydrocarbon hydroxylase (AHH). AhR was shown to regulate TCDD-mediated toxicity against a variety of tissues including the immune system. More recently, AhR has been characterized as key regulator of the immune system, specifically the differentiation of T cells. Also, several AhR ligands have been characterized in addition to TCDD such as …

Defining The Pathophysiology Of Gut Humoral Immunodeficiency, Ahmed Dawood Mohammed

Theses and Dissertations

Mucosal antibodies maintain gut homeostasis by promoting spatial segregation between host tissues and luminal microbes. Antibody-deficiency is the most common form of primary immunodeficiency observed in humans. In antibody-deficient humans, abnormal composition of the gut microbiota ('dysbiosis') is associated with chronic inflammatory responses and gastrointestinal complications. However, the mechanisms by which dysbiosis promotes inflammatory disease are poorly defined. In the studies described in this dissertation, we utilize CD19-/- mice as a model of antibody deficiency to test the hypothesis that antibody deficiency negatively impacts gut physiology under steady-state conditions. Chapter #1 is an overview of B cell development and how …

Removal Of Selected Organic Contaminants By Various (Nano) Adsorbent-Ultrafiltration Hybrid Systems, Sewoon Kim

Theses and Dissertations

Organic contaminants, which result from overuse and discharge of dyes, pharmaceutically active compounds, personal care products, and endocrine-disrupting compounds, have been received attention as contemporary water issues. However, conventional water and/or wastewater treatment system cannot sufficiently control for these contaminants for their stability and complexity. In this study, combined novel adsorbent with ultrafiltration (UF) hybrid system (termed ‘adsorbent-UF’) was applied to removal selected organic contaminants. UF with upstream adsorption has positive effects on performance in terms of the removal of selected organic contaminants, separating used adsorbents and reducing foulants. Activated biochar, metal organic frameworks, and Ti3C2TX MXene were used as …

Multimodal Robotic Health In Future Factories Through Iiot, Data Analytics, And Virtual Commissioning, Clint Saidy

Theses and Dissertations

The manufacturing sector is continuously reinventing itself by embracing opportunities offered by the industrial internet of things and big data, among other advances. Modern manufacturing platforms are defined by the quest for ever increasing automation along all aspects of the production cycle. Furthermore, in the next decades, research and industry are expected to develop a large variety of autonomous robots for a large variety of tasks and environments enabling future factories. This continuing pressure towards automation dictates that emergent technologies are leveraged in a manner that suits this purpose. These challenges can be addressed through the advanced methods such as …

Mechanism Of Therapeutic Efficacy Of New Drugs In Glioblastoma, Firas Hameed Khathayer

Theses and Dissertations

Glioblastoma is the most malignant and prevalent brain tumor in adults. It can grow and spread quickly causing harm to brain health. The deregulation of epigenetic mechanisms is considered the main agent in the developing of GBM. One of the enzymes involved in epigenetic alternation and cancer development are histone deacetylases enzyme (HDAC) by removal acetyl group from histone and create condensed chromatin that suppresses transcription gene to histone and non-histone proteins involved in tumorigenesis. Histone deacetylase inhibitors (HADCi) are the most common therapeutic methods for many types of cancer treatments. In the present study, we used relative HDAC inhibitor …

Signatures Of Vibrational And Electronic Quantum Beats In Femtosecond Coherence Spectra, Paul C. Arpin, Daniel B. Turner

Materials Science and Engineering Faculty Publications and Presentations

Femtosecond laser pulses can produce oscillatory signals in transient-absorption spectroscopy measurements. The quantum beats are often studied using femtosecond coherence spectra (FCS), the Fourier domain amplitude, and phase profiles at individual oscillation frequencies. In principle, one can identify the mechanism that gives rise to each quantum-beat signal by comparing its measured FCS to those arising from microscopic models. To date, however, most measured FCS deviate from the ubiquitous harmonic oscillator model. Here, we expand the inventory of models to which the measured spectra can be compared. We develop quantum-mechanical models of the fundamental, overtone, and combination-band FCS arising from harmonic …

Twisted Spatiotemporal Optical Vortex Random Fields, Milo W. Hyde Iv

Faculty Publications

We present twisted spatiotemporal optical vortex (STOV) beams, which are partially coherent light sources that possess a coherent optical vortex and a random twist coupling their space and time dimensions. These beams have controllable partial coherence and transverse orbital angular momentum (OAM), which distinguishes them from the more common spatial vortex and twisted beams (known to carry longitudinal OAM) in the literature and should ultimately make them useful in applications such as optical communications and optical tweezing. We present the mathematical analysis of twisted STOV beams, deriving the mutual coherence function and linear and angular momentum densities. We simulate the …

The Role Of Rejuvenators In Embedded Damage Healing For Asphalt Pavement, Shi Xu, Xueyan Liu, Amir Tabakovic, P Lin, Y Zhang, S Nahar, B J. Lommerts, Erik Schlangen

Articles

Rejuvenator encapsulation technique showed great potential for extrinsic asphalt pavement damage healing. Once the capsules are embedded within asphalt pavement, the healing is activated on-demand via progressing microcrack. When the microcrack encounters the capsule, the fracture energy at the tip opens the capsule and releases the rejuvenator. Then the released rejuvenator wets the crack surfaces, diffuses into and softens the aged bitumen, allowing two broken edges to come in the contact, preventing further asphalt pavement deterioration. The quality and speed of the damage repair process strongly depend on the quality of rejuvenator, thus it is important to choose a proper …

Diffuse Reflectance Spectroscopy For The Evaluation Of Mid-Palatal Suture Maturation After Expansion, Binhuan Yuan

Master's Theses (2009 -)

Diffuse reflectance spectroscopy (DRS) is a technique for characterizing the optical properties of biological tissues and has been extensively studied for diagnosis and therapeutic monitoring of various diseases. This thesis investigates the potential use of DRS for the evaluation of mid-palatal suture maturation after expansion. The most common evaluation technique for palatal expansion is Computed Tomography (CT). The major issue with CT is that during serial radiological scanning, patients are repeatedly exposed to ionizing radiation. DRS is a non-invasive, non-ionizing method which can be used to quantify the tissue optical properties in the visible wavelength in vivo. This study demonstrates …

An Injectable Thermosensitive Hydrogel Potentially Used For Wound Dressing With Self-Adhesive Properties, Yunxiu Qiu

McKelvey School of Engineering Graduate Student Theses & Dissertations

Wound healing is a complex process, and different kinds of materials are tried to achieve rapid healing. Among them, hydrogel is one of the best candidates for would dressing due to its distinctive properties, such as high biocompatibility, flexibility, and sensitivity to physiological environments. Injectable hydrogels can be facilely delivered in vivo without massive impairment to the body, as no surgical incision is needed for hydrogel embedment. This is highly consistent with the need of minimal invasion on human body. Multiple stimuli could be applied to achieve its injectability, including pH, temperature, light, ions in body fluids. Thermosensitive hydrogel is …

Design Of Graphene-Based Sensors For Nucleic Acids Detection And Analysis, Asma’ Wasfi Fayez Mustafa

Dissertations

DNA (Deoxyribonucleic Acid) is the blueprint of life as it encodes all genetic information. In genetic disorder such as gene fusion, Copy Number Variation (CNV), and single nucleotide polymorphism, Nucleic acids such as DNA bases detection and analysis is used as the gold standard for successful diagnosis. Researchers have been conducting rigorous studies to achieve genome sequences at low cost while maintaining high accuracy and high throughput. A quick, accurate, and low-cost DNA detection approach would revolutionize medicine. Genome sequence helps to enhance people’s perception of inheritance, disease, and individuality. This research aims to improve DNA bases detection accuracy, and …

Moderate Heat-Assisted Gene Electrotransfer For Intradermal Dna Vaccination And Protein Replacement Therapy In The Skin, Chelsea Marie Edelblute

Biomedical Sciences Theses & Dissertations

Gene electrotransfer (GET) holds great promise for the delivery of therapeutic agents. The skin serves as an attractive target for GET due to its availability and unique cellular composition. Protein replacement therapy and DNA vaccination are potential applications for intradermal GET. The combination of moderate tissue preheating and GET has been shown to achieve elevated gene expression levels while reducing the necessary applied voltage. In the current work, we utilized a 16-pin multi-electrode array (MEA) and incorporated nine optical fibers, connected to an infrared laser, to pre-heat the tissue to 43°C before application of GET. In a guinea pig model, …

Anisotropic Scaffolds For Peripheral Nerve And Spinal Cord Regeneration, Wen Xue, Wen Shi, Yunfan Kong, Mitchell Kuss, Bin Duan

Department of Mechanical and Materials Engineering: Faculty Publications

The treatment of long-gap (>10 mm) peripheral nerve injury (PNI) and spinal cord injury (SCI) remains a continuous challenge due to limited native tissue regeneration capabilities. The current clinical strategy of using autografts for PNI suffers from a source shortage, while the pharmacological treatment for SCI presents dissatisfactory results. Tissue engineering, as an alternative, is a promising approach for regenerating peripheral nerves and spinal cords. Through providing a beneficial environment, a scaffold is the primary element in tissue engineering. In particular, scaffolds with anisotropic structures resembling the native extracellular matrix (ECM) can effectively guide neural outgrowth and reconnection. In …

Learning Discriminative And Efficient Attention For Person Re-Identification Using Agglomerative Clustering Frameworks, Kshitij Nikhal

Department of Electrical and Computer Engineering: Dissertations, Theses, and Student Research

Recent advancements like multiple contextual analysis, attention mechanisms, distance-aware optimization, and multi-task guidance have been widely used for supervised person re-identification (ReID), but the implementation and effects of such methods in unsupervised person ReID frameworks are non-trivial and unclear, respectively. Moreover, with increasing size and complexity of image- and video-based ReID datasets, manual or semi-automated annotation procedures for supervised ReID are becoming labor intensive and cost prohibitive, which is undesirable especially considering the likelihood of annotation errors increase with scale/complexity of data collections. Therefore, this thesis proposes a new iterative clustering framework that incorporates (a) two attention architectures that learn …

Internet Of Things Based Messaging Protocols For Aquaculture Applications - A Bibliometric Analysis And Review, Rupali Shete, Anupkumar M. Bongale Dr., Arunkumar Bongale Dr.

Library Philosophy and Practice (e-journal)

Internet of Things (IoT) which connects real-world physical objects with various identities involves different technologies and research areas. As it is an integration of different standards and technologies with numerous capabilities, the implementation phase needs to consider important parameters of communication. In IoT this is achieved through messaging protocols. Each object has its own limitations in terms of sensing capability, storage capacity, connectivity, power utilization, etc. And hence when such objects are deployed for different applications, they need to perform well in terms of their various capabilities. Messaging protocols at this stage need to consider these diverse elements. One of …

Bibliometric Analysis Of Named Entity Recognition For Chemoinformatics And Biomedical Information Extraction Of Ovarian Cancer, Vijayshri Khedkar, Charlotte Fernandes, Devshi Desai, Mansi R, Gurunath Chavan Dr, Sonali Tidke Dr., M. Karthikeyan Dr.

Library Philosophy and Practice (e-journal)

With the massive amount of data that has been generated in the form of unstructured text documents, Biomedical Named Entity Recognition (BioNER) is becoming increasingly important in the field of biomedical research. Since currently there does not exist any automatic archiving of the obtained results, a lot of this information remains hidden in the textual details and is not easily accessible for further analysis. Hence, text mining methods and natural language processing techniques are used for the extraction of information from such publications.Named entity recognition, is a subtask that comes under information extraction that focuses on finding and categorizing specific …

Authentication Schemes' Impact On Working Memory, Janine D. Mator

Psychology Theses & Dissertations

Authentication is the process by which a computing system validates a user’s identity. Although this process is necessary for system security, users view authentication as a frequent disruption to their primary tasks. During this disruption, primary task information must be actively maintained in working memory. As a result, primary task information stored in working memory is at risk of being lost or corrupted while users authenticate. For over two decades, researchers have focused on developing more memorable passwords by replacing alphanumeric text with visual graphics (Biddle et al., 2012). However, very little attention has been given to the impact authentication …

Feature Extraction And Design In Deep Learning Models, Daniel Perez

Computational Modeling & Simulation Engineering Theses & Dissertations

The selection and computation of meaningful features is critical for developing good deep learning methods. This dissertation demonstrates how focusing on this process can significantly improve the results of learning-based approaches. Specifically, this dissertation presents a series of different studies in which feature extraction and design was a significant factor for obtaining effective results. The first two studies are a content-based image retrieval system (CBIR) and a seagrass quantification study in which deep learning models were used to extract meaningful high-level features that significantly increased the performance of the approaches. Secondly, a method for change detection is proposed where the …

Consequence Of Seawater Intrusion On Soil Properties In Agricultural Areas Of Nonthaburi Province, Thailand, Napaporn Phankamolsil, Kiattisak Sonsri, Yutthana Phankamolsil

Applied Environmental Research

Seawater intrusion associated with climate change and sea level rise (SLR) has been postulated for the last decade that causes negative impact on worldwide environmental resources. In Thailand, however; the information pertaining to its effect on soil properties in agricultural areas has not been clearly reported yet. Hence, this study aimed to investigate the seawater intrusion effect on soil properties in agricultural areas of Nonthaburi Province, Thailand. Five study locations, which anticipated to be affected by seawater intrusion, were selected based on the different distances from the Chao Phraya River. Soil morphological properties were recorded, besides undisturbed soil samples at …

Air Quality Indexing, Mapping And Principal Components Analysis Of Ambient Air Pollutants Around Farm Settlements Across Ogun State, Nigeria, Funmilola Oyebanji, Godson Ana, Opeyemi Tope-Ajayi, Adebayo Sadiq, Yahaya Mijinyawa

Applied Environmental Research

The focus of this study was to portray the spatial pattern of air quality across seasons in the eight sampled farm settlements using air quality indexes and assess the clusters of monitored air pollutants. The concentrations of air pollutants were determined using in-situ portable gas detectors and particulate counter. The AQI for each criteria pollutants (CO, O3, TSP, PM10, SO2, and PM2.5) was calculated using AQI formulae of the United States Environmental Protection Agency and mapped using the Inverse distance weighting (IDW) interpolation method in the Geographic information systems (GIS) environment. Principal component analysis (PCA) was used to group the …